Quantification of microbial cells and virus-like particles in sediments from Atacama Trench


Sediment cores were collected using a multicorer (MUC). Microbes and virus-like particles were extracted from sediments in a 3°C room using a modified version of the washing protocol of Danovaro and Middelboe, 2010 (see Schauberger et al., 2021). After the washing procedure, the extracted microbial cells and virus-like particles were fixed with 25% glutaraldehyde (1% final concentration) and stored at −80°C prior to flow cytometry. These samples were measured in triplicates using a BD FACSCanto™ II flow cytometer, after staining with SYBR Green I. Sediment extracts were diluted 1 : 10 in 0.02 μm-filtered TE Buffer prior to all measurements. The flow rate was 5–7 μl/min, as determined by BD Trucount™ Beads. The laser settings and gating examples can be found in the Supporting Information of Schauberger et al. (2021).

DOI https://doi.org/10.1594/PANGAEA.965920
Related Identifier https://doi.org/10.1002/lno.11711
Metadata Access https://ws.pangaea.de/oai/provider?verb=GetRecord&metadataPrefix=datacite4&identifier=oai:pangaea.de:doi:10.1594/PANGAEA.965920
Creator Schauberger, Clemens ORCID logo; Middelboe, Mathias ORCID logo; Glud, Ronnie N (ORCID: 0000-0002-7069-893X)
Publisher PANGAEA
Publication Year 2024
Funding Reference Danish National Research Foundation https://doi.org/10.13039/501100001732 Crossref Funder ID DNRF145 Danish Center for Hadal Research, HADAL
Rights Creative Commons Attribution 4.0 International; https://creativecommons.org/licenses/by/4.0/
OpenAccess true
Resource Type Dataset
Format text/tab-separated-values
Size 2167 data points
Discipline Earth System Research
Spatial Coverage (-71.621W, -24.285S, -70.838E, -20.326N)
Temporal Coverage Begin 2018-03-06T07:41:00Z
Temporal Coverage End 2018-03-28T17:17:00Z